R package for Unifrac and Weighted Unifrac other than Phyloseq?
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5.4 years ago
ariel ▴ 250

I've been googling, and I can't find an R package that calculates weighted and unweighted unifrac distances other than phyloseq. I'm doing all of my other analysis by hand from tables, so if possible I'd rather not have to convert to phyloseq objects just for this part of the analysis.

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If you can get the data into R, you can import it into phyloseq.

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You are kidding, right?

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I don't know of another R package that has this and if there isn't any either you can code it yourself or you can use the existing implementation. To help with the latter I gave you the link to the phyloseq tutorial part on how to convert various R data structures into phyloseq objects.

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Thanks @Jean-Karim. I'm trying to get away from using Phyloseq in general which is why I asked for an alternative. I've been switching over to working directly from tables as I find I have more control, write tidier code, and reduce the size of r sessions.

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